INFO:root:about to clone! DEBUG:root:running: git clone --recursive https://github.com/hl7-eu/hdr --branch 0.1.0-ballot repo DEBUG:root:Time to deadline 35879.997298 seconds Cloning into 'repo'... Note: switching to '17c867695eb7dfe320a99300a367145043987c43'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false DEBUG:root:running: wget -q https://github.com/HL7/fhir-ig-publisher/releases/latest/download/publisher.jar -O publisher.jar DEBUG:root:Time to deadline 35878.727384 seconds DEBUG:root:running: npm -g install fsh-sushi DEBUG:root:Time to deadline 35877.658428 seconds npm WARN deprecated rimraf@2.6.3: Rimraf versions prior to v4 are no longer supported npm WARN deprecated inflight@1.0.6: This module is not supported, and leaks memory. Do not use it. Check out lru-cache if you want a good and tested way to coalesce async requests by a key value, which is much more comprehensive and powerful. npm WARN deprecated glob@7.2.3: Glob versions prior to v9 are no longer supported added 139 packages in 8s 14 packages are looking for funding run `npm fund` for details npm notice npm notice New major version of npm available! 9.8.1 -> 11.6.2 npm notice Changelog: npm notice Run `npm install -g npm@11.6.2` to update! npm notice DEBUG:root:running: java -Xms19000m -Xmx19000m -jar ../publisher.jar -ig ig.json -api-key-file /etc/ig.builder.keyfile.ini -fhir-settings /etc/fhir-settings.json -auto-ig-build -tx http://tx.fhir.org -target https://build.fhir.org/ig/hl7-eu/hdr/ -out /scratch/repo DEBUG:root:Time to deadline 35869.702425 seconds FHIR IG Publisher Version 2.0.20 (Git# 487d8f9634de). Built 2025-10-09T01:56:51.278Z (3 days old) Detected Java version: 21-ea from /usr/local/openjdk-21 on Linux/amd64 (64bit). 19008MB available dir = /scratch/repo, path = /usr/local/openjdk-21/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin Parameters: -ig ig.json -api-key-file /etc/ig.builder.keyfile.ini -fhir-settings /etc/fhir-settings.json -auto-ig-build -tx http://tx.fhir.org -target https://build.fhir.org/ig/hl7-eu/hdr/ -out /scratch/repo Character encoding = UTF-8 / UTF-8 Start Clock @ Sunday, October 12, 2025, 3:26:57 PM Coordinated Universal Time (2025-10-12T15:26:57Z) Build FHIR IG from /scratch/repo (00:00.029 / 00:00.030, 97Mb) API keys loaded from /etc/fhir-settings.json (00:00.003 / 00:00.032, 97Mb) Package Cache: /var/lib/.fhir/packages (00:00.003 / 00:00.036, 97Mb) Found dependency on hl7.fhir.uv.ips#1.1.0 in Sushi config. Pre-installing (00:00.006 / 00:00.043, 97Mb) Installing hl7.fhir.uv.ips#1.1.0 to the package cache  Fetching:  Installing hl7.fhir.uv.ips#1.1.0  done. Found dependency on hl7.fhir.extensions.r5#4.0.1 in Sushi config. Pre-installing (00:03.024 / 00:03.067, 80Mb) Installing hl7.fhir.extensions.r5#4.0.1 to the package cache  Fetching: Error fetching https://packages2.fhir.org/packages/hl7.fhir.extensions.r5: Not Found Error fetching https://packages.fhir.org/hl7.fhir.extensions.r5: Not Found Unable to install hl7.fhir.extensions.r5#4.0.1: Unable to resolve package id hl7.fhir.extensions.r5#4.0.1 (00:01.066 / 00:04.134, 128Mb) Trying to go on (00:00.001 / 00:04.135, 128Mb) Found dependency on hl7.fhir.eu.extensions.r4#0.1.1-ballot in Sushi config. Pre-installing (00:00.000 / 00:04.135, 128Mb) Installing hl7.fhir.eu.extensions.r4#0.1.1-ballot to the package cache  Fetching:  Installing hl7.fhir.eu.extensions.r4#0.1.1-ballot  done. Found dependency on hl7.fhir.eu.laboratory#0.1.1 in Sushi config. Pre-installing (00:00.991 / 00:05.126, 133Mb) Installing hl7.fhir.eu.laboratory#0.1.1 to the package cache  Fetching:  Installing hl7.fhir.eu.laboratory#0.1.1  done. Found dependency on hl7.fhir.eu.base#0.1.0-ballot in Sushi config. Pre-installing (00:00.662 / 00:05.788, 144Mb) Installing hl7.fhir.eu.base#0.1.0-ballot to the package cache  Fetching:  Installing hl7.fhir.eu.base#0.1.0-ballot  done. Found dependency on ihe.pharm.mpd.r4#1.0.0-comment-2 in Sushi config. Pre-installing (00:00.388 / 00:06.177, 149Mb) Installing ihe.pharm.mpd.r4#1.0.0-comment-2 to the package cache  Fetching:  Installing ihe.pharm.mpd.r4#1.0.0-comment-2  done. Run Sushi on /scratch/repo (00:00.494 / 00:06.671, 160Mb) Sushi: info Running SUSHI v3.16.5 (implements FHIR Shorthand specification v3.0.0) (00:00.803 / 00:07.475, 169Mb) Sushi: info Arguments: (00:00.000 / 00:07.475, 169Mb) Sushi: info --require-latest (00:00.000 / 00:07.476, 169Mb) Sushi: info --out /scratch/repo (00:00.000 / 00:07.476, 169Mb) Sushi: info /scratch/repo (00:00.000 / 00:07.476, 169Mb) Sushi: info Using configuration file: /scratch/repo/sushi-config.yaml (00:00.802 / 00:08.279, 169Mb) Sushi: info Importing FSH text... (00:00.200 / 00:08.479, 169Mb) Sushi: info Preprocessed 106 documents with 202 aliases. (00:01.028 / 00:09.508, 169Mb) Sushi: info Imported 81 definitions and 89 instances. (00:00.583 / 00:10.092, 169Mb) Sushi: info Loaded virtual package sushi-r5forR4#1.0.0 with 7 resources (00:00.180 / 00:10.273, 169Mb) Sushi: info Resolved hl7.fhir.uv.tools.r4#latest to concrete version 0.8.0 (00:00.619 / 00:10.892, 169Mb) Sushi: info Attempting to download hl7.fhir.uv.tools.r4#0.8.0 from https://packages.fhir.org/hl7.fhir.uv.tools.r4/0.8.0 (00:00.001 / 00:10.894, 169Mb) Sushi: info Downloaded hl7.fhir.uv.tools.r4#0.8.0 (00:00.817 / 00:11.711, 169Mb) Sushi: info Cached hl7.fhir.uv.tools.r4#0.8.0 to /home/fhiruser/.fhir/packages/hl7.fhir.uv.tools.r4#0.8.0 (00:00.003 / 00:11.714, 169Mb) Sushi: info Loaded hl7.fhir.uv.tools.r4#0.8.0 with 110 resources (00:00.091 / 00:11.805, 169Mb) Sushi: info Resolved hl7.terminology.r4#latest to concrete version 6.5.0 (00:00.471 / 00:12.276, 169Mb) Sushi: info Attempting to download hl7.terminology.r4#6.5.0 from https://packages.fhir.org/hl7.terminology.r4/6.5.0 (00:00.000 / 00:12.277, 169Mb) Sushi: info Downloaded hl7.terminology.r4#6.5.0 (00:03.046 / 00:15.324, 169Mb) Sushi: info Cached hl7.terminology.r4#6.5.0 to /home/fhiruser/.fhir/packages/hl7.terminology.r4#6.5.0 (00:00.001 / 00:15.326, 169Mb) Sushi: info Loaded hl7.terminology.r4#6.5.0 with 4392 resources (00:01.790 / 00:17.116, 169Mb) Sushi: info Resolved hl7.fhir.uv.extensions.r4#latest to concrete version 5.2.0 (00:00.534 / 00:17.651, 169Mb) Sushi: info Attempting to download hl7.fhir.uv.extensions.r4#5.2.0 from https://packages.fhir.org/hl7.fhir.uv.extensions.r4/5.2.0 (00:00.000 / 00:17.651, 169Mb) Sushi: info Downloaded hl7.fhir.uv.extensions.r4#5.2.0 (00:01.507 / 00:19.159, 169Mb) Sushi: info Cached hl7.fhir.uv.extensions.r4#5.2.0 to /home/fhiruser/.fhir/packages/hl7.fhir.uv.extensions.r4#5.2.0 (00:00.001 / 00:19.160, 169Mb) Sushi: info Loaded hl7.fhir.uv.extensions.r4#5.2.0 with 759 resources (00:00.396 / 00:19.556, 169Mb) Sushi: info Loaded hl7.fhir.uv.ips#1.1.0 with 104 resources (00:00.138 / 00:19.695, 169Mb) Sushi: info Loading supplemental version of FHIR to support extensions from hl7.fhir.extensions.r5 (00:00.000 / 00:19.696, 169Mb) Sushi: info Attempting to download hl7.fhir.r5.core#5.0.0 from https://packages.fhir.org/hl7.fhir.r5.core/5.0.0 (00:00.020 / 00:19.717, 169Mb) Sushi: info Downloaded hl7.fhir.r5.core#5.0.0 (00:04.094 / 00:23.811, 169Mb) Sushi: info Cached hl7.fhir.r5.core#5.0.0 to /home/fhiruser/.fhir/packages/hl7.fhir.r5.core#5.0.0 (00:00.002 / 00:23.813, 169Mb) Sushi: info Loaded hl7.fhir.r5.core#5.0.0 with 2968 resources (00:01.420 / 00:25.233, 169Mb) Sushi: info Loaded hl7.fhir.eu.extensions.r4#0.1.1-ballot with 7 resources (00:00.006 / 00:25.240, 169Mb) Sushi: info Loaded hl7.fhir.eu.laboratory#0.1.1 with 63 resources (00:00.044 / 00:25.285, 169Mb) Sushi: info Loaded hl7.fhir.eu.base#0.1.0-ballot with 23 resources (00:00.016 / 00:25.301, 169Mb) Sushi: info Loaded ihe.pharm.mpd.r4#1.0.0-comment-2 with 48 resources (00:00.016 / 00:25.318, 169Mb) Sushi: info Attempting to download hl7.fhir.r4.core#4.0.1 from https://packages.fhir.org/hl7.fhir.r4.core/4.0.1 (00:00.000 / 00:25.318, 169Mb) Sushi: info Downloaded hl7.fhir.r4.core#4.0.1 (00:03.322 / 00:28.641, 169Mb) Sushi: info Cached hl7.fhir.r4.core#4.0.1 to /home/fhiruser/.fhir/packages/hl7.fhir.r4.core#4.0.1 (00:00.001 / 00:28.642, 169Mb) Sushi: info Loaded hl7.fhir.r4.core#4.0.1 with 4581 resources (00:01.508 / 00:30.151, 169Mb) Sushi: info Loaded virtual package sushi-local#LOCAL with 0 resources (00:00.007 / 00:30.159, 169Mb) Sushi: info Converting FSH to FHIR resources... (00:00.024 / 00:30.184, 169Mb) Sushi: info Converted 63 FHIR StructureDefinitions. (00:33.041 / 01:03.225, 169Mb) Sushi: info Converted 1 FHIR CodeSystems. (00:00.022 / 01:03.248, 169Mb) Sushi: info Converted 17 FHIR ValueSets. (00:01.389 / 01:04.637, 169Mb) Sushi: info Converted 89 FHIR instances. (00:15.474 / 01:20.111, 169Mb) Sushi: info Exporting FHIR resources as JSON... (00:00.001 / 01:20.113, 169Mb) Sushi: info Exported 129 FHIR resources as JSON. (00:00.731 / 01:20.844, 169Mb) Sushi: info Assembling Implementation Guide sources... (00:00.005 / 01:20.849, 169Mb) Sushi: info Generated ImplementationGuide-hl7.fhir.eu.hdr.json (00:00.064 / 01:20.913, 169Mb) Sushi: info Assembled Implementation Guide sources; ready for IG Publisher. (00:00.000 / 01:20.914, 169Mb) Sushi: ========================= SUSHI RESULTS =========================== (00:00.001 / 01:20.916, 169Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:20.916, 169Mb) Sushi: | | Profiles | Extensions | Logicals | Resources | | (00:00.000 / 01:20.916, 169Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 01:20.917, 169Mb) Sushi: | | 48 | 1 | 14 | 0 | | (00:00.000 / 01:20.917, 169Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:20.917, 169Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:20.917, 169Mb) Sushi: | | ValueSets | CodeSystems | Instances | | (00:00.000 / 01:20.917, 169Mb) Sushi: | |-------------------------------------------------------------| | (00:00.000 / 01:20.918, 169Mb) Sushi: | | 17 | 1 | 89 | | (00:00.000 / 01:20.918, 169Mb) Sushi: | ------------------------------------------------------------- | (00:00.000 / 01:20.918, 169Mb) Sushi: | | (00:00.000 / 01:20.918, 169Mb) Sushi: =================================================================== (00:00.000 / 01:20.918, 169Mb) Sushi: | You swim with the sharks! 0 Errors 0 Warnings | (00:00.000 / 01:20.919, 169Mb) Sushi: =================================================================== (00:00.000 / 01:20.919, 169Mb) Root directory: /scratch/repo (00:00.037 / 01:20.957, 169Mb) Unable to load IG as an r5 IG - try R4 (property code is a class com.google.gson.JsonPrimitive looking for an object) (00:00.818 / 01:21.775, 64Mb) Load Template from #ig-template (00:00.703 / 01:22.479, 65Mb) Load Template from hl7.fhir.template#current (00:00.004 / 01:22.483, 65Mb) Installing hl7.fhir.template#current to the package cache  Fetching:  Installing hl7.fhir.template#current  done.  Load Template from hl7.base.template#current (00:00.269 / 01:22.752, 65Mb) Installing hl7.base.template#current to the package cache  Fetching:  Installing hl7.base.template#current  done.  Load Template from fhir2.base.template#current (00:00.168 / 01:22.921, 65Mb) Installing fhir2.base.template#current to the package cache  Fetching:  Installing fhir2.base.template#current  done. Terminology Cache is at /scratch/repo/input-cache/txcache. Trimming now (00:05.522 / 01:28.444, 384Mb) Core Package hl7.fhir.r4.core#4.0.1 (00:00.000 / 01:28.444, 384Mb) Running Terminology Log: /tmp/ohfu-fhir-ig-2558989939167542404.html Connect to Terminology Server at http://tx.fhir.org (00:32.444 / 02:00.889, 591Mb) Installing hl7.fhir.pubpack#0.2.3 to the package cache  Fetching:  Installing hl7.fhir.pubpack#0.2.3  done. Load Package hl7.fhir.pubpack#0.2.3 Installing hl7.fhir.xver-extensions#0.1.0 to the package cache  Fetching:  Installing hl7.fhir.xver-extensions#0.1.0  done. Load Package hl7.fhir.xver-extensions#0.1.0 Load Package hl7.terminology.r4#6.5.0 Load Package hl7.fhir.uv.extensions.r4#5.2.0 Installing hl7.terminology.r4#5.0.0 to the package cache  Fetching:  Installing hl7.terminology.r4#5.0.0  done. Load Package hl7.terminology.r4#5.0.0 Installing fhir.dicom#2022.4.20221006 to the package cache  Fetching:  Installing fhir.dicom#2022.4.20221006  done. Load Package fhir.dicom#2022.4.20221006 Load Package hl7.fhir.uv.ips#1.1.0 Installing hl7.terminology.r4#6.2.0 to the package cache  Fetching:  Installing hl7.terminology.r4#6.2.0  done. Load Package hl7.terminology.r4#6.2.0 Load Package hl7.fhir.eu.extensions.r4#0.1.1-ballot Installing hl7.fhir.eu.extensions#0.1.x to the package cache  Fetching:  Installing hl7.fhir.eu.extensions#0.1.0  done. Installing hl7.terminology.r4#5.3.0 to the package cache  Fetching:  Installing hl7.terminology.r4#5.3.0  done. Load Package hl7.terminology.r4#5.3.0 Installing hl7.fhir.uv.extensions.r4#1.0.0 to the package cache  Fetching:  Installing hl7.fhir.uv.extensions.r4#1.0.0  done. Load Package hl7.fhir.uv.extensions.r4#1.0.0 Load Package hl7.fhir.eu.extensions#0.1.0 Load Package hl7.fhir.eu.laboratory#0.1.1 Installing hl7.terminology.r4#6.3.0 to the package cache  Fetching:  Installing hl7.terminology.r4#6.3.0  done. Load Package hl7.terminology.r4#6.3.0 Load Package hl7.fhir.eu.base#0.1.0-ballot Load Package ihe.pharm.mpd.r4#1.0.0-comment-2 Load Package hl7.fhir.uv.tools.r4#0.8.0 Load R5 Specials Initialization complete (01:08.949 / 03:09.839, 5Gb) Load IG (00:00.000 / 03:09.839, 5Gb) Load Translations (00:00.000 / 03:09.840, 5Gb) Load Content (00:00.000 / 03:09.840, 5Gb) Using en as the default narrative language. (Implementation Guide param i18n-default-lang) (00:00.213 / 03:10.054, 5Gb) Process Loaded Resources (00:03.643 / 03:13.698, 6Gb) Generating Snapshots (00:01.704 / 03:15.403, 6Gb) Can't find Quantity profile http://hl7.org/fhir/StructureDefinition/SimpleQuantity but trying to go on Signing Certificate: RSA key for Subject: OU=IG Publisher, L=Ann Arbor, CN=hl7.org, O=HL7, ST=Missouri, C=us from: OU=IG Publisher, L=Ann Arbor, CN=hl7.org, O=HL7, ST=Missouri, C=us Fetch http://hl7.eu/fhir/hdr/package-list.json for version check (00:06.811 / 03:22.214, 2Gb) Processing Conformance Resources (00:00.780 / 03:22.994, 2Gb) Checking Language (00:00.000 / 03:22.994, 2Gb) Load Dependency Info (00:00.003 / 03:22.998, 2Gb) Load Info (00:00.002 / 03:23.000, 2Gb) Load Paths (00:00.001 / 03:23.001, 2Gb) Check R4 / R4B (00:00.000 / 03:23.002, 2Gb) Assign Comparison Ids (00:00.285 / 03:23.287, 728Mb) Propagating status (00:00.000 / 03:23.288, 728Mb) Generating Narratives (00:00.000 / 03:23.288, 728Mb) Validating Conformance Resources (00:25.411 / 03:48.700, 1Gb) Failed to determine latest version of package hl7.fhir.eu.base from server: https://packages2.fhir.org/packages Failed to determine latest version of package hl7.fhir.eu.base from server: https://packages.fhir.org Failed to determine latest version of package hl7.fhir.eu.base from server: build.fhir.org Latest version of package hl7.fhir.eu.base found locally is 0.1.0-ballot - using that Check profiles & code systems (02:34.517 / 06:23.217, 7Gb) Check realm rules (00:00.018 / 06:23.236, 7Gb) Previous Version Comparison (00:00.000 / 06:23.236, 7Gb) Checking for Bundles to sign (00:00.180 / 06:23.417, 7Gb) Validating Resources (00:00.000 / 06:23.417, 7Gb) Processing Provenance Records (00:16.590 / 06:40.008, 8Gb) Generating Translation artifacts (00:00.000 / 06:40.008, 8Gb) Generating Outputs in /scratch/repo/output (00:00.002 / 06:40.010, 8Gb) Generate Native Outputs (00:00.271 / 06:40.282, 8Gb) Run Template (00:36.192 / 07:16.474, 4Gb) **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Allergy Intolerance **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Allergy Intolerance **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Bundle: complete HL7 Europe Hospital Discharge Report **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Bundle: complete HL7 Europe Hospital Discharge Report **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Bundle: complete HL7 Europe Hospital Discharge Report **WARNING** Jira file generation will not be correct because multiple artifacts have the same name (ignoring content in "()"): Observation: Imaging Finding Generate HTML Outputs (00:06.990 / 07:23.465, 1Gb) Generate Spreadsheets (03:25.869 / 10:49.335, 4Gb) Generate Summaries (00:19.739 / 11:09.074, 1Gb) Generating Summary Outputs (en) (00:00.000 / 11:09.074, 1Gb) DB Cumulative Time invested: 00:01:24.777 Sending Usage Stats to Server (00:26.851 / 11:35.926, 4Gb) ## Memory (MB): Use = 4188, Free = 14819, Total = 19008, Max = 19008 (00:00.021 / 11:35.947, 4Gb) Reclaiming memory... (00:00.000 / 11:35.947, 4Gb) ## Memory (MB): Use = 1450, Free = 17557, Total = 19008, Max = 19008 (00:02.045 / 11:37.994, 1Gb) Run jekyll: jekyll build --destination "/scratch/repo/output" (in folder /scratch/repo/temp/pages) (00:00.002 / 11:37.996, 1Gb) Troubleshooting Note: usual cases for Jekyll to fail are: (00:00.000 / 11:37.996, 1Gb) * A failure to produce a fragment that is already logged in the output above (00:00.000 / 11:37.996, 1Gb) * A reference to a manually edited file that hasn't been provided (00:00.000 / 11:37.996, 1Gb) Jekyll: Source: /scratch/repo/temp/pages (00:00.564 / 11:38.561, 1Gb) Jekyll: Generating... (00:00.000 / 11:38.561, 1Gb) Jekyll has failed. Complete output from running Jekyll:  Liquid Exception: Could not locate the included file 'ip-statements.xhtml' in any of ["/scratch/repo/temp/pages/_includes"]. Ensure it exists in one of those directories and, if it is a symlink, does not point outside your site source. in en/copyrig (00:11.061 / 11:49.622, 1Gb) Note: Check that Jekyll is installed correctly (00:00.000 / 11:49.622, 1Gb) Publishing Content Failed: Process exited with an error: 1 (Exit value: 1) (00:00.036 / 11:49.658, 1Gb) (00:00.000 / 11:49.658, 1Gb) Use -? to get command line help (00:00.000 / 11:49.658, 1Gb) (00:00.000 / 11:49.658, 1Gb) Stack Dump (for debugging): (00:00.000 / 11:49.658, 1Gb) org.apache.commons.exec.ExecuteException: Process exited with an error: 1 (Exit value: 1) at org.apache.commons.exec.DefaultExecutor.executeInternal(DefaultExecutor.java:404) at org.apache.commons.exec.DefaultExecutor.execute(DefaultExecutor.java:166) at org.apache.commons.exec.DefaultExecutor.execute(DefaultExecutor.java:153) at org.hl7.fhir.igtools.publisher.PublisherGenerator.runJekyll(PublisherGenerator.java:3705) at org.hl7.fhir.igtools.publisher.PublisherGenerator.runTool(PublisherGenerator.java:3592) at org.hl7.fhir.igtools.publisher.PublisherGenerator.generate(PublisherGenerator.java:361) at org.hl7.fhir.igtools.publisher.Publisher.createIg(Publisher.java:396) at org.hl7.fhir.igtools.publisher.Publisher.execute(Publisher.java:218) at org.hl7.fhir.igtools.publisher.Publisher.main(Publisher.java:1487)